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ABSTRACT: Biofertilizers and pathogen biocontrol for sustainable maize cultivation

PROVIDER: PRJNA517540 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	SRR12633800_1.fastq.gz	Fastqsanger.gz
	SRR12633800_2.fastq.gz	Fastqsanger.gz
	SRR12633801_1.fastq.gz	Fastqsanger.gz
	SRR12633801_2.fastq.gz	Fastqsanger.gz

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Gene expression during wood pathogen infection in the presence of a root biocontrol agent in grapevine.

Project description:Transcriptional changes occurring at the infection site of 2 weeks old Cabernet sauvignon grapevine cuttings infected with a wood pathogen (Phaeomoniella chlamydospora) in the presence of a root-inoculated biocontrol agent (Pythium oligandrum). Gene expression profiling was done using the Nimblegen whole genome array with 3 biological replicates of 3 pooled wood chunks harvested 0 and 14 d after treatment (pathogen infection, biocontrol agent inoculation, mock treatment).

2016-03-15 | E-MTAB-3899 | biostudies-arrayexpress

Transcriptional reprogramming underpins enhanced plant growth promotion by the biocontrol fungus Trichoderma hamatum GD12 during antagonistic interactions with Sclerotinia sclerotiorum in soil

Project description:The free-living soil fungus Trichoderma hamatum GD12 is notable amongst other Trichoderma strains in exhibiting both biocontrol and plant growth promotion (PGP) activities, which are coincident with a markedly expanded genome when compared to other characterised biocontrol and PGP isolates. Here, we make direct comparisons of T. hamatum GD12 transcription during PGP, and during antagonism of the root-infecting pathogen Sclerotinia sclerotiorum, in peat-based microcosms. An extensive mRNA-seq analysis sampling six time-points, 1, 2, 4, 7, 10 and 15 days after microcosm establishment revealed dynamic and biphasic signatures in the transcriptional responses of T. hamatum GD12 during Sclerotinia biocontrol and lettuce growth promotion. Functional analysis of differentially expressed genes demonstrated up-regulation of transportation and oxidation-reduction genes during both processes. Sclerotinia biocontrol is most likely mediated by the synthesis and secretion of antifungal compounds. Notably, the biphasic response during biocontrol was further characterised by the expression of a number of uncharacterised GD12 genes, small-secreted cysteine rich proteins and secondary metabolite producing gene clusters. This work demonstrates that T. hamatum GD12 harnesses a reservoir of uncharacterised genes that are actively engaged during effective biological control of a plurivorous plant pathogen.

2016-05-16 | GSE67909 | GEO

Transcriptome of two maize lines seedlings show resistance and susceptible to corn smut during infection of Ustilago maydis

Project description:The biotrophic fungal pathogen Ustilago maydis cause common smut in maize, and lead to gall formation on all aerial organs, especially on maize kernel thus reduce yield. The interaction of U. maydis with maize is a well-established model to study the interaction between maize and biotrophic pathogen. U. maydis infection could activate host immune responses including: ROS accumulation, protease activation, salicylic acid signaling. U. maydis employ several strategies to overcome maize immune response, thus initial the biotrophic interaction with host. It has been suggested that genetic factors of maize host affected the disease severity of U. maydis infection, here we investigated the transcriptome profile of resistance and susceptible maize lines upon U. maydis infection, thus propose candidate maize genes involved in the defense response in maize to corn smut cause by U. maydis.

2021-04-15 | GSE172071 | GEO

Transcriptomic and methylation analysis of susceptible and tolerant grape genotypes following P. viticola infection

Project description:Downy mildew, caused by the biotrophic oomycete Plasmopara viticola, is one of the most economically significant grapevine diseases worldwide. Current strategies to cope with this threat rely on the massive use of phytochemical compounds during each cultivation season. The economic costs and negative environmental impact associated with these applications increased the urge to search for alternative strategies for sustainable disease control. Improved knowledge on plant mechanisms able to counteract pathogen infection may allow the development of alternative strategies of plant protection. Epigenetic regulation, in particular DNA methylation, is emerging as a key factor in the context of plant-pathogen interactions, associated with the expression modulation of defense genes. To improve our understanding of the genetic and epigenetic mechanisms underpinning grapevine response to P. viticola, we studied the modulation of both 5-mC methylation and gene expression at 6 and 24 hours post-infection (hpi). Leaves of two table grape genotypes (Vitis vinifera), selected by breeding activities for their contrasting level of susceptibility to pathogen, were analysed. Following pathogen infection, we found variations in the 5-mC methylation level and in the gene expression profile. The results indicate a genotypic-specific response to pathogen infection. The tolerant genotype (N23/018) at 6 hpi exhibits a lower methylation level compared to the susceptible one (N20/20), and its shows an early modulation (at 6 hpi) of defense and epigenetic-related genes during P. viticola infection. These data suggest that the timing of response is an important mechanism to efficiently counteract the pathogen attack.

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Floral transition in maize infected with Sporisorium reilianum disrupts compatibility with this biotrophic fungal pathogen

Project description:Sporisorium reilianum f. sp. zeae is an important biotrophic pathogen that causes head smut disease in maize. Head smut is not obvious until the tassels and ears emerge. S. reilianum has a very long life cycle that spans almost the entire developmental program of maize after the pathogen successfully invades the root. The aim of this study was to understand at a molecular level how this pathogen interacts with the host during its long life cycle, and how this interaction differs between susceptible and resistant varieties of maize after hyphal invasion. We investigated transcriptional changes in the resistant maize line Mo17 at four developmental stages using a maize 70mer-oligonucleotide microarray. We found that there was a lengthy compatible relationship between the pathogen and host until the early 8th-leaf stage. The resistance in Mo17 relied on the assignment of auxins and regulation of flavonoids in the early floral primordium during the early floral transition stage. We propose a model describing the putative mechanism of head smut resistance in Mo17 during floral transition. In the model, the synergistic regulations among auxins, flavonoids, and hyphal growth play a key role in maintaining compatibility with S. reilianum in the resistant maize line

2013-01-29 | GSE41916 | GEO

Maize tumors caused by Ustilago maydis require organ-specific genes in host and pathogen

Project description:Two-organism transcriptome profiling of infected seedling, adult leaf, and tassel demonstrated that both the host and pathogen exhibit organ-specific expression programs. Phenotypic screening of U. maydis mutants deleted for suites of secreted protein genes and maize growth mutants demonstrated organ-restricted tumorigenesis. Two-dye, competitive hybridizations were performed on Agilent oligo arrays. Keywords: maize, pathogen, fungus, Ustilago, organ-specificity

2010-04-01 | GSE20130 | GEO

The transcriptomic responses of maize stalks infected with Fusarium graminearum PH-1 and Δcfem1

Project description:This experiment is to assess the changes of maize genes expression in response to Fusarium graminearum stains wild-type PH-1 and Δcfem1 mutant. F. graminearum is the major casual fungal pathogen of Gibberella stalk rot on maize.

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Project description:To further confirm whether the expression of NRT genes were influenced by pathogen infection, maize leaves were sampled at 0h, 24h, 40h, 60h and 96h post inoculation with wild-type strain Colletotrichum graminicola, the causing agent of maize anthracnose disease.

2022-08-13 | GSE210899 | GEO

Volatile organic compounds emitted by the biocontrol agent Pythium oligandrum contribute to ginger plant growth and disease resistance

Project description:The oomycete Pythium oligandrum is a potential biocontrol agent to control a wide range of fungal and oomycetes-caused diseases such as Pythium myriotylum-caused rhizome rot in ginger leading to reduced yields and compromised quality. Previously, P. oligandrum has been studied for its plant growth-promoting potential by auxin production and induction of disease resistance by elicitors such as oligandrin. Volatile organic compounds (VOCs) play beneficial roles in sustainable agriculture by enhancing plant growth and resistance. We investigated the contribution of P. oligandrum-produced VOCs on plant growth and disease suppression by initially using N. benthamiana plants for screening. P. oligandrum VOCs significantly enhanced tobacco seedling and plant biomass content. Screening of the individual VOCs showed that 3-octanone and hexadecane promoted the growth of tobacco seedlings. The total VOCs from P. oligandrum also enhanced the shoot and root growth of ginger plants. Transcriptomic analysis showed a higher expression of genes related to plant growth hormones, and stress responses in the leaves of ginger plants exposed to P. oligandrum VOCs. The concentrations of plant growth hormones such as auxin, zeatin, and gibberellic acid were higher in the leaves of ginger plants exposed to P. oligandrum VOCs. In a ginger disease biocontrol assay, the VOC-exposed ginger plants infected with P. myriotylum had lower levels of disease severity. We conclude that this study contributes to understanding the growth-promoting mechanisms of P. oligandrum on ginger and tobacco, priming of ginger plants against various stress and the mechanisms of action of P. oligandrum as a biocontrol agent.

2023-06-22 | GSE235182 | GEO

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